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Model-Based Background Correction (MBCB): R Methods and GUI for Illumina Bead-array Data | OMICS International | Abstract
ISSN: 1948-5956

Journal of Cancer Science & Therapy
Open Access

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Research Article

Model-Based Background Correction (MBCB): R Methods and GUI for Illumina Bead-array Data

Jeffrey D. Allen1,2, Min Chen3, Yang Xie2,4*

1Department of Computer Science and Engineering, Southern Methodist University, Dallas, TX, 75205, USA

2Division of Biostatistics, Department of Clinical Sciences, University of Texas Southwestern Medical Center, 5323 Harry Hines Blvd, Dallas, TX, 75390, USA

3Department of Epidemiology and Public Health, Yale University, 300 George Street, Suite 503, New Haven, CT 06510, USA

4Harold C. Simmons Comprehensive Cancer Center University of Texas, Southwestern Medical Center, 5323 Harry Hines Blvd, Dallas, TX, 75390, USA

*Corresponding Author:
Dr. Yang Xie
Division of Biostatistics
Department of Clinical Sciences
University of Texas Southwestern Medical Center
5323 Harry Hines Blvd, Dallas, TX, 75390, USA
E-mail : [email protected]

Received Date: November 01, 2009; Accepted Date: November 25, 2009; Published Date: November 25, 2009

Citation: Allen JD, Chen M, Xie Y (2009) Model-Based Background Correction (MBCB): R methods and GUI for Illumina Bead-array Data. J Cancer Sci Ther 1: 025-027. doi:10.4172/1948-5956.1000004

Copyright: © 2009 Allen JD, et al. This is an open-access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited.


Summary: Illumina BeadArray platform (Illumina Inc.) is playing an increasing role in cancer research. MBCB, an R package designed for use on Illumina Bead-Array data, allows for microarray data to be pre-processed through various model-based statistical methods. These model-based background-correction methods have proven to be a significant improvement over the traditional methods provided by Illumina in their BeadStudio software. MBCB accepts the summarized bead-type data; the data can then be normalized and background-corrected in a statistically-efficient manner. When compared to the popular Robust multi-array (RMA) background correction approach and the default, Illuminaprovided background-correction method, MBCB has shown to lead to more precise determination of gene expression and better biological interpretation of Illumina BeadArray data. The software developed will facilitate molecular biomedical - especially cancer - research. Availability: This package will soon be available from Bioconductor. Instructions for use are included with the package.


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